Conserved protein domains are maintained in an average ratio to proteome size

Table 1 Comparison of averaged conserved domain ratios between SMART and Proteome Analysis Database and their relationship to Proteome size

	SMART Database			Proteome Analysis Database
	Average ratio of genes with CD in organism to total genes with CD in 5 organisms	Sum of predicted genes for all 5 organisms	Product	Average ratio of genes with CD in organism to total genes with CD in 3 organisms	Sum of predicted genes for all 3 organisms	Product	Predicted total Genes in Genome
H. sapiens	0.386	100500	38793				35000
D. melanogaster	0.172	100500	17286	0.454	39500	17933	14100
A. thaliana	0.283	100500	28442				26000
C. elegans	0.158	100500	15879	0.405	39500	15998	19100
S. cerevisiae	0.076	100500	7638	0.141	39500	5569.5	6300

Relationship 3 was used for all conserved domains and the results were averaged for each genome. A comparison between both databases yields very similar results for D. melanogaster and C. elegans. S. cerevisiae data differed between the databases but the differences are centered around the predicted total number of genes. Interestingly, both databases gave a ratio of D. melanogaster and C. elegans that exchanged their predicted total genes.

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